Ecosyste.ms: Papers

10.1371/journal.pone.0070730

Epigenetic Differentiation Persists after Male Gametogenesis in Natural Populations of the Perennial Herb Helleborus foetidus (Ranunculaceae)
Cited by: 32
Author(s): Carlos M. Herrera, Mónica Medrano, Pilar Bazaga
Software Mentions: 3
Published: over 11 years ago

10.1186/s12284-019-0327-5

Unraveling the Genetic Elements Involved in Shoot and Root Growth Regulation by Jasmonate in Rice Using a Genome-Wide Association Study
Cited by: 28
Author(s): Huong Thi Mai To, Hieu Trang Nguyen, Nguyet Thi-Minh Dang, Ngan Huyen Nguyen, Thai Xuan Bui, Jérémy Lavarenne, Nhung Thi Phuong Phung, Pascal Gantet, Michel Lebrun, Stéphane Bellafiore, Antony Champion
Software Mentions: 3
Published: about 5 years ago

10.3390/pathogens10091202

Seasonal Variation in Prevalence of Mycoplasma hyopneumoniae and Other Respiratory Pathogens in Peri-Weaned, Post-Weaned, and Fattening Pigs with Clinical Signs of Respiratory Diseases in Belgian and Dutch Pig Herds, Using a Tracheobronchial Swab Sampling Technique, and Their Associations with Local Weather Conditions
Cited by: 8
Author(s): Frédéric Vangroenweghe, Olivier Thas
Software Mentions: 3
Published: about 3 years ago

10.7554/eLife.65884

Leveraging the Mendelian disorders of the epigenetic machinery to systematically map functional epigenetic variation
Cited by: 7
Author(s): Teresa Romeo Luperchio, Leandros Boukas, Li Zhang, Genay Pilarowski, Jenny Jiang, Allison Kalinousky, Kasper D. Hansen, Hans T. Björnsson
Software Mentions: 3
Published: about 3 years ago

10.1007/s00109-012-0925-9

Early steps of microglial activation are directly affected by neuroprotectant FK506 in both in vitro inflammation and in rat model of stroke
Cited by: 33
Author(s): Małgorzata Zawadzka, Michal Dabrowski, Agata Gozdz, Barbara Szadujkis, Marcin Sliwa, Maciej Lipko, Bożena Kamińska
Software Mentions: 3
Published: over 12 years ago

10.3390/medicina57090861

Gene Expression Analysis in Patients with Cocaine-Induced Midline Destructive Lesions
Cited by: 3
Author(s): Matteo Trimarchi, Giacomo Bertazzoni, Alessandro Vinciguerra, Celia Pardini, Fabio Simeoni, Davide Cittaro, Mario Bussi, Dejan Lazarevic
Software Mentions: 3
Published: about 3 years ago

10.1186/s12864-016-3445-0

The nature and nurture of cell heterogeneity: accounting for macrophage gene-environment interactions with single-cell RNA-Seq
Cited by: 22
Author(s): Quin F. Wills, Esther Mellado-Gomez, Rory Nolan, Damien Warner, Eshita Sharma, John Broxholme, Benjamin Wright, Helen Lockstone, William James, Mark Lynch, Michael L. Gonzales, Jay West, Anne Leyrat, Sergi Padilla‐Parra, Sarah Filippi, Chris Holmes, Michael D. Moore, Rory Bowden
Software Mentions: 3
Published: almost 8 years ago

10.1016/j.molmet.2020.100978

Functional changes of the liver in the absence of growth hormone (GH) action – Proteomic and metabolomic insights from a GH receptor deficient pig model
Cited by: 20
Author(s): Evamaria Olga Riedel, Arne Hinrichs, Elisabeth Kemter, Maik Dahlhoff, Mattias Backman, Birgit Rathkolb, Cornelia Prehn, Jerzy Adamski, Simone Renner, Andreas Blutke, Martin Hrabě de Angelis, Martin Bidlingmaier, Jochen Schopohl, Georg J. Arnold, Thomas Fröhlich, Eckhard Wolf
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pgen.1004015

Dual Regulation of Gene Expression Mediated by Extended MAPK Activation and Salicylic Acid Contributes to Robust Innate Immunity in Arabidopsis thaliana
Cited by: 198
Author(s): Kazuhiko Tsuda, Akira Mine, Gerit Bethke, Daisuke Igarashi, Christopher Botanga, Yayoi Tsuda, Jane Glazebrook, Mitsuru Sato, Fumiaki Katagiri
Software Mentions: 3
Published: almost 11 years ago

10.1152/ajpendo.00065.2019

Mechanistic inferences on metabolic dysfunction in posttraumatic stress disorder from an integrated model and multiomic analysis: role of glucocorticoid receptor sensitivity
Cited by: 22
Author(s): Pramod R. Somvanshi, Synthia H. Mellon, Janine D. Flory, Duna Abu‐Amara, Owen M. Wolkowitz, Rachel Yehuda, Marti Jett, Leroy Hood, Charles R. Marmar, Francis J. Doyle
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0010770

Integrative Genome Comparison of Primary and Metastatic Melanomas
Cited by: 159
Author(s): Omar Kabbarah, Cristina Nogueira, Bin Feng, Rosalynn M. Nazarian, Marcus W. Bosenberg, Min Wu, Kenneth L. Scott, Lawrence N. Kwong, Yonghong Xiao, Carlos Cordón-Cardo, Scott R. Granter, Sridhar Ramaswamy, Todd R. Golub, Lyn M. Duncan, Stephan N. Wagner, Cameron Brennan, Lynda Chin
Software Mentions: 3
Published: over 14 years ago

10.1002/ece3.2550

The challenge of separating signatures of local adaptation from those of isolation by distance and colonization history: The case of two white pines
Cited by: 69
Author(s): Simon Nadeau, Patrick G. Meirmans, Sally N. Aitken, Kermit Ritland, Nathalie Isabel
Software Mentions: 3
Published: about 8 years ago

10.1186/s13059-020-02256-0

Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding
Cited by: 55
Author(s): Taolan Zhao, Yanming Chen, Yü Liu, Jia Wang, Siyu Chen, Ning Gao, Wenfeng Qian
Software Mentions: 3
Published: almost 4 years ago

10.1186/1471-2105-6-199

Cited by: 84
Author(s): Per Broberg
Software Mentions: 3
Published: almost 20 years ago

10.1002/ece3.5468

Population genomic structure of the gelatinous zooplankton species <i>Mnemiopsis leidyi</i> in its nonindigenous range in the North Sea
Cited by: 2
Author(s): Christophe Verwimp, Lies Vansteenbrugge, Sofie Derycke, Thomas Kerkhove, Hilde Muylle, Olivier Honnay, Tom Ruttink, Isabel Roldán‐Ruiz, Kris Hostens
Software Mentions: 3
Published: about 5 years ago

10.1111/eva.12082

Investigating the genetics of<i><scp>B</scp>ti</i>resistance using m<scp>RNA</scp>tag sequencing: application on laboratory strains and natural populations of the dengue vector<i><scp>A</scp>edes aegypti</i>
Cited by: 9
Author(s): Margot Paris, Sébastien Marcombe, Éric Coissac, Vincent Corbel, Jean‐Philippe David, Laurence Després
Software Mentions: 3
Published: about 11 years ago

10.1186/s13059-016-0954-8

DNA methylation changes facilitated evolution of genes derived from Mutator-like transposable elements
Cited by: 13
Author(s): Jun Wang, Yeisoo Yu, Tao Feng, Jian Wei Zhang, Dario Copetti, Dave Kudrna, Jayson Talag, Seung‐Hee Lee, Rod A. Wing, Chuanzhu Fan
Software Mentions: 3
Published: over 8 years ago

10.1186/gb-2007-8-10-r210

Perturbation of gene expression of the chromatin remodeling pathway in premature newborns at risk for bronchopulmonary dysplasia
Cited by: 38
Author(s): Jack Cohen, Linda J. Van Marter, Yanfang Sun, Elizabeth N. Allred, Alan Leviton, Isaac S. Kohane
Software Mentions: 3
Published: almost 18 years ago

10.1186/s12864-018-5086-y

Genome-wide association study of agronomic traits in rice cultivated in temperate regions
Cited by: 14
Author(s): Juan Luis Reig-Valiente, Luis Marqués, Manuel Talón, Concha Domingo
Software Mentions: 3
Published: about 6 years ago

10.1007/s00122-019-03507-w

Genetic mapping using a wheat multi-founder population reveals a locus on chromosome 2A controlling resistance to both leaf and glume blotch caused by the necrotrophic fungal pathogen Parastagonospora nodorum
Cited by: 34
Author(s): Min Lin, Beatrice Corsi, Andrea Ficke, Kar‐Chun Tan, James Cockram, Morten Lillemo
Software Mentions: 3
Published: almost 5 years ago

10.1534/g3.119.400705

Genome of<i>Spea multiplicata</i>, a Rapidly Developing, Phenotypically Plastic, and Desert-Adapted Spadefoot Toad
Cited by: 22
Author(s): Fabian Seidl, Nicholas A. Levis, Rachel Schell, David W. Pfennig, Karin S. Pfennig, Ian M. Ehrenreich
Software Mentions: 3
Published: almost 5 years ago

10.3389/fimmu.2021.614599

Reduced Expression of Autophagy Markers and Expansion of Myeloid-Derived Suppressor Cells Correlate With Poor T Cell Response in Severe COVID-19 Patients
Cited by: 45
Author(s): Sergej Tomić, Jelena Đokić, Dejan Stevanović, Nataša Ilić, Alisa Gruden-Movsesijan, Miroslav Dinić, Dušan Radojević, Marina Bekić, Nebojša Mitrović, Ratko Tomašević, Mikic Dragan, Dragoš Stojanović, Miodrag Čolić
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0016739

Multilocus Association Testing of Quantitative Traits Based on Partial Least-Squares Analysis
Cited by: 13
Author(s): Feng Zhang, Xiong Guo, Hong‐Wen Deng
Software Mentions: 3
Published: almost 14 years ago

10.1038/s41598-020-60179-z

The association of Chlamydia trachomatis and Mycoplasma genitalium infection with the vaginal metabolome
Cited by: 22
Author(s): Joanna-Lynn C. Borgogna, Michelle Shardell, Carl J. Yeoman, Khalil G. Ghanem, Herlin Kadriu, Alexander Ulanov, Charlotte A. Gaydos, Justin Hardick, Courtney K. Robinson, Patrik M. Bavoil, Jacques Ravel, Rebecca M. Brotman, Susan Tuddenham
Software Mentions: 3
Published: over 4 years ago

10.1186/1752-0509-2-95

Integrated Weighted Gene Co-expression Network Analysis with an Application to Chronic Fatigue Syndrome
Cited by: 152
Author(s): Angela P. Presson, Eric M. Sobel, Jeanette C. Papp, Charlyn Suarez, Toni Whistler, Mangalathu S. Rajeevan, Suzanne D. Vernon, Steve Horvath
Software Mentions: 3
Published: about 16 years ago

10.1098/rsob.170153

The <i>NDE1</i> genomic locus can affect treatment of psychiatric illness through gene expression changes related to microRNA-484
Cited by: 12
Author(s): Nicholas J. Bradshaw, Liisa Ukkola-Vuoti, Maiju Pankakoski, Amanda B Zheutlin, Alfredo Ortega‐Alonso, Minna Holm, Vishal Sinha, Sebastian Therman, Tiina Paunio, Jaana Suvisaari, Jouko Lönnqvist, Tyrone D. Cannon, Jari Haukka, William Hennah
Software Mentions: 3
Published: about 7 years ago

10.1093/aobpla/plx068

Intraspecific variation in response to magnitude and frequency of freeze-thaw cycles in a temperate grass
Cited by: 5
Author(s): Charlotte Dietrich, Jüergen Kreyling, Anke Jentsch, Andrey V. Malyshev
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pbio.1001637

Effects of Diet on Resource Utilization by a Model Human Gut Microbiota Containing Bacteroides cellulosilyticus WH2, a Symbiont with an Extensive Glycobiome
Cited by: 238
Author(s): Nathan P. McNulty, Meng Wu, Alison R. Erickson, Chongle Pan, Brian K. Erickson, Eric C. Martens, Nicholas A. Pudlo, Brian D. Muegge, Bernard Henrissat, Robert L. Hettich, Jeffrey I. Gordon
Software Mentions: 3
Published: over 11 years ago

10.1038/s41598-017-04869-1

Selective breeding and selection mapping using a novel wild-derived heterogeneous stock of mice revealed two closely-linked loci for tameness
Cited by: 14
Author(s): Yuki Matsumoto, Tatsuhiko Goto, Junichi Nishino, Hirofumi Nakaoka, Akira Tanave, Toshiyuki Takano-Shimizu, Richard Mott, Tsuyoshi Koide
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0229192

Beef cattle that respond differently to fescue toxicosis have distinct gastrointestinal tract microbiota
Cited by: 16
Author(s): Lucas R Koester, Daniel Poole, Nick V. L. Serão, Stephan Schmitz‐Esser
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0002737

Type I Interferon: Potential Therapeutic Target for Psoriasis?
Cited by: 253
Author(s): Yihong Yao, Laura K. Richman, Chris Morehouse, Melissa de los Reyes, Brandon W. Higgs, Anmarie Boutrin, Barbara White, Anthony J. Coyle, James G. Krueger, Peter A. Kiener, Bahija Jallal
Software Mentions: 3
Published: over 16 years ago

10.1186/s40168-018-0455-y

Use of dietary indices to control for diet in human gut microbiota studies
Cited by: 80
Author(s): Ruth C E Bowyer, Matthew A. Jackson, Tess Pallister, Jane Skinner, Tim D. Spector, Ailsa Welch, Claire J. Steves
Software Mentions: 3
Published: over 6 years ago

10.1111/tpj.14156

Transcriptional profiling identifies critical steps of cell cycle reprogramming necessary for <i>Plasmodiophora brassicae</i>‐driven gall formation in Arabidopsis
Cited by: 21
Author(s): Marcin Olszak, William Truman, Karolina Stefanowicz, Elwira Śliwińska, Masaki Ito, Piotr Walerowski, Stephen A. Rolfe, Robert Malinowski
Software Mentions: 3
Published: almost 6 years ago

10.1242/bio.054189

A stem cell based in vitro model of NAFLD enables the analysis of patient specific individual metabolic adaptations in response to a high fat diet and AdipoRon interference
Cited by: 6
Author(s): Nina Graffmann, Audrey Ncube, Soraia Martins, Aurelian Robert Fiszl, Philipp Reuther, Martina Bohndorf, Wasco Wruck, Mathias Beller, Constantin Czekelius, James Adjaye
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0020280

Integrative DNA Methylation and Gene Expression Analyses Identify DNA Packaging and Epigenetic Regulatory Genes Associated with Low Motility Sperm
Cited by: 117
Author(s): Sara Pacheco, E. Andrés Houseman, Brock C. Christensen, Carmen J. Marsit, Karl T. Kelsey, Mark Sigman, Kim Boekelheide
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pgen.1007240

Methods for fine-mapping with chromatin and expression data
Cited by: 4
Author(s): Megan Roytman, Gleb Kichaev, Alexander Gusev, Bogdan Paşaniuc
Software Mentions: 2
Published: over 6 years ago

10.1038/s10038-020-00895-6

Variation in the SERPINA6/SERPINA1 locus alters morning plasma cortisol, hepatic corticosteroid binding globulin expression, gene expression in peripheral tissues, and risk of cardiovascular disease
Cited by: 30
Author(s): Andrew Crawford, Sean Bankier, Elisabeth Altmaier, Catriona L. K. Barnes, David W. Clark, Raili Ermel, Nele Friedrich, Pim van der Harst, Peter K. Joshi, Ville Karhunen, Jari Lahti, Anubha Mahajan, Massimo Mangino, Maria Nethander, Alexander Neumann, Maik Pietzner, Katyayani Sukhavasi, Carol A. Wang, Stephan J. L. Bakker, Johan Björkegren, Harry Campbell, Johan G. Eriksson, Christian Gieger, Caroline Hayward, Marjo‐Riitta Järvelin, Stela McLachlan, Andrew P. Morris, Claes Ohlsson, Craig E. Pennell, Jackie F. Price, Igor Rudan, Arno Ruusalepp, Timothy D. Spector, Henning Tiemeier, Henry Völzke, James R. Wilson, Tom Michoel, Nicholas J. Timpson, George Davey Smith, Brian R. Walker
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pgen.1001043

Breast Cancer DNA Methylation Profiles Are Associated with Tumor Size and Alcohol and Folate Intake
Cited by: 144
Author(s): Brock C. Christensen, Karl T. Kelsey, Shichun Zheng, E. Andrés Houseman, Carmen J. Marsit, Margaret Wrensch, Joseph L. Wiemels, Heather H. Nelson, Margaret R. Karagas, Lawrence H. Kushi, Marilyn L. Kwan, John K. Wiencke
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pgen.1005711

Genetic Architecture of Atherosclerosis in Mice: A Systems Genetics Analysis of Common Inbred Strains
Cited by: 119
Author(s): Brian J. Bennett, Richard C. Davis, Mete Civelek, Luz D. Orozco, Junzhou Wu, Hannah Qi, Calvin Pan, René R. Sevag Packard, Eleazar Eskin, Mujing Yan, Todd G. Kirchgessner, Zeneng Wang, Xinmin Li, Jill C. Gregory, Stanley L. Hazen, Peter S. Gargalovic, Aldons J. Lusis
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pgen.1000602

Aging and Environmental Exposures Alter Tissue-Specific DNA Methylation Dependent upon CpG Island Context
Cited by: 947
Author(s): Brock C. Christensen, E. Andrés Houseman, Carmen J. Marsit, Shichun Zheng, Margaret Wrensch, Joseph L. Wiemels, Heather H. Nelson, Margaret R. Karagas, Jamés F. Padbury, Raphael Bueno, David J. Sugarbaker, Ru Fang Yeh, John K. Wiencke, Karl T. Kelsey
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pgen.1006952

Deciphering the genetic control of gene expression following Mycobacterium leprae antigen stimulation
Cited by: 33
Author(s): Jérémy Manry, Yohann Nédélec, Vinicius M. Fava, Aurélie Cobat, Marianna Orlova, Nguyen Van Thuc, Vu Hong Thai, Guillaume Laval, Luis B. Barreiro, Erwin Schurr
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pgen.0040013

Life Span Extension by Calorie Restriction Depends on Rim15 and Transcription Factors Downstream of Ras/PKA, Tor, and Sch9
Cited by: 395
Author(s): Min Wei, Paola Fabrizio, Jia Hu, Huanying Ge, Chao Cheng, Lei Li, Valter D. Longo
Software Mentions: 2
Published: almost 17 years ago

10.1371/journal.pone.0055923

The Presence of Methylation Quantitative Trait Loci Indicates a Direct Genetic Influence on the Level of DNA Methylation in Adipose Tissue
Cited by: 77
Author(s): Alexander W. Drong, George Nicholson, Åsa K. Hedman, Eshwar Meduri, Elin Grundberg, Kerrin S. Small, So–Youn Shin, Jordana T. Bell, Fredrik Karpe, Nicole Soranzo, Tim D. Spector, Mark I. McCarthy, Panos Deloukas, Mattias Rantalainen, Cecilia M. Lindgren
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0151089

Cisplatin Resistant Spheroids Model Clinically Relevant Survival Mechanisms in Ovarian Tumors
Cited by: 36
Author(s): Winyoo Chowanadisai, Shanta M. Messerli, Daniel Miller, Jamie E. Medina, Joshua W. Hamilton, Mark A. Messerli, Alexander S. Brodsky
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.01381

Genetic interactions affecting human gene expression identified by variance association mapping
Cited by: 109
Author(s): Andrew Anand Brown, Alfonso Buil, Ana Viñuela, Tuuli Lappalainen, Hou-Feng Zheng, J. Brent Richards, Kerrin S. Small, Timothy D. Spector, Emmanouil T. Dermitzakis, Richard Durbin
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0012334

Identification of Methylated Genes Associated with Aggressive Bladder Cancer
Cited by: 81
Author(s): Carmen J. Marsit, E. Andrés Houseman, Brock C. Christensen, Luc Gagne, Margaret Wrensch, Heather H. Nelson, Joseph L. Wiemels, Shichun Zheng, John K. Wiencke, Angeline S. Andrew, Alan R. Schned, Margaret R. Karagas, Karl T. Kelsey
Software Mentions: 2
Published: about 14 years ago

10.1186/s12918-015-0250-3

Meta-analysis of sex differences in gene expression in schizophrenia
Cited by: 22
Author(s): Wenyi Qin, Cong Liu, Monsheel S. Sodhi, Hui Lu
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pgen.1003760

Plasticity Regulators Modulate Specific Root Traits in Discrete Nitrogen Environments
Cited by: 79
Author(s): Miriam L. Gifford, Joshua A. Banta, Manpreet S. Katari, Jo Hulsmans, Lisa Chen, Daniela Ristova, Daniel Tranchina, Michael D. Purugganan, Gloria M. Coruzzi, Kenneth D. Birnbaum
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0192116

Genome-wide association study to identify candidate loci and genes for Mn toxicity tolerance in rice
Cited by: 17
Author(s): Asis Shrestha, Ambrose Kwaku Dziwornu, Yoshiaki Ueda, Lijia Wu, Boby Mathew, Michael Frei
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0257856

Untargeted analysis of the serum metabolome in cats with exocrine pancreatic insufficiency
Cited by: 1
Author(s): Patrick C. Barko, David A. Williams
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pone.0007677

Relationship between CAD Risk Genotype in the Chromosome 9p21 Locus and Gene Expression. Identification of Eight New ANRIL Splice Variants
Cited by: 149
Author(s): Lasse Folkersen, Theodosios Kyriakou, Anuj Goel, John F. Peden, Anders Mälarstig, Gabrielle Paulsson-Berne, Anders Hamsten, Anders Franco‐Cereceda, Anders Gabrielsen, Per Eriksson
Software Mentions: 2
Published: about 15 years ago

10.1186/1756-0500-7-401

A mutation in a splicing factor that causes retinitis pigmentosa has a transcriptome-wide effect on mRNA splicing
Cited by: 7
Author(s): Paul K. Korir, Lisa Roberts, Raj Ramesar, Cathal Seoighe
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0130890

A Genome-Wide Association Study for Culm Cellulose Content in Barley Reveals Candidate Genes Co-Expressed with Members of the CELLULOSE SYNTHASE A Gene Family
Cited by: 23
Author(s): Kelly Houston, Rachel A. Burton, Beata Sznajder, Antoni Rafalski, Kanwarpal S. Dhugga, D. E. Mather, James L. Taylor, Brian J. Steffenson, Robbie Waugh, Geoffrey B. Fincher
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0003839

Transcriptome-Wide Identification of Novel Imprinted Genes in Neonatal Mouse Brain
Cited by: 175
Author(s): Xiaozhu Wang, Qiwei Sun, Sean McGrath, Elaine R. Mardis, Paul D. Soloway, Andrew G. Clark
Software Mentions: 2
Published: almost 16 years ago

10.1371/journal.pone.0035901

Neurogenomic Evidence for a Shared Mechanism of the Antidepressant Effects of Exercise and Chronic Fluoxetine in Mice
Cited by: 42
Author(s): Guo-Jen Huang, Eyal Ben-David, Agnès Tort Piella, Andrew Edwards, Jonathan Flint, Sagiv Shifman
Software Mentions: 2
Published: over 12 years ago

10.1186/s12888-016-0831-8

Investigation of the clinical utility of the hypomania checklist 32 (HCL-32) for the screening of bipolar disorders in the non-clinical adult population
Cited by: 14
Author(s): Kounseok Lee, Hyeji Oh, Eun‐Ho Lee, Joo Hyun Kim, Ji-Hae Kim, Kyung Sue Hong
Software Mentions: 2
Published: over 8 years ago

10.1186/1755-8794-7-34

On the identification of potential regulatory variants within genome wide association candidate SNP sets
Cited by: 42
Author(s): Chih-Yu Chen, I‐Shou Chang, Chao A. Hsiung, Wyeth W. Wasserman
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.54080

Genetic profiling of protein burden and nuclear export overload
Cited by: 7
Author(s): Reiko Kintaka, Koji Makanae, Shotaro Namba, Hisaaki Kato, Keiji Kito, Shinsuke Ohnuki, Yoshikazu Ohya, Brenda Andrews, Charles Boone, Hisao Moriya
Software Mentions: 2
Published: about 4 years ago

10.3390/cells9092026

Chemical Genetics Approach Identifies Abnormal Inflorescence Meristem 1 as a Putative Target of a Novel Sulfonamide That Protects Catalase2-Deficient Arabidopsis against Photorespiratory Stress
Cited by: 2
Author(s): Tom van der Meer, Arno Verlee, Patrick J. Willems, Francis Impens, Kris Gevaert, Christa Testerink, Christian V. Stevens, Frank Van Breusegem, Pavel Kerchev
Software Mentions: 2
Published: about 4 years ago

10.1038/s42003-020-01583-z

Cerebrospinal fluid metabolomics identifies 19 brain-related phenotype associations
Cited by: 22
Author(s): Daniel J. Panyard, Kyeong Mo Kim, Burcu F. Darst, Yuetiva Deming, Xiaoyuan Zhong, Yuchang Wu, Hyun-Seung Kang, Cynthia M. Carlsson, Sterling C. Johnson, Sanjay Asthana, Corinne D. Engelman, Qiongshi Lu
Software Mentions: 2
Published: almost 4 years ago

10.15252/embj.2020104464

Astrocytic phagocytosis is a compensatory mechanism for microglial dysfunction
Cited by: 82
Author(s): Hiroyuki Konishi, Takayuki Okamoto, Yuichiro Hara, Okiru Komine, Hiromi Tamada, Masayuki Maeda, Fumika Osako, Masaaki Kobayashi, Akira Nishiyama, Yosky Kataoka, Toshiyuki Takai, Nobuyuki Udagawa, Steffen Jung, Keiko Ozato, Tomohide Tamura, Makoto Tsuda, Koji Yamanaka, Tomoo Ogi, Katsuaki Sato, Hiroshi Kiyama
Software Mentions: 2
Published: about 4 years ago

10.1002/ece3.1599

Adaptive plasticity and niche expansion in an invasive thistle
Cited by: 40
Author(s): Kathryn G. Turner, Hélène Fréville, Loren H. Rieseberg
Software Mentions: 2
Published: over 9 years ago

10.3389/fncel.2017.00233

Novel Influences of IL-10 on CNS Inflammation Revealed by Integrated Analyses of Cytokine Networks and Microglial Morphology
Cited by: 12
Author(s): W. T. Anderson, Andrew D. Greenhalgh, Aditya Takwale, Samuel David, Rajanikanth Vadigepalli
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2021.634441

ERAP2 Increases the Abundance of a Peptide Submotif Highly Selective for the Birdshot Uveitis-Associated HLA-A29
Cited by: 16
Author(s): Wouter J. Venema, Sanne Hiddingh, Joke H. de Boer, Frans H.J. Claas, Arend Mulder, Anneke I. den Hollander, Efstratios Stratikos, Siranush Sarkizova, Lars T. van der Veken, George M.C. Janssen, Peter A. van Veelen, Jonas J.W. Kuiper
Software Mentions: 2
Published: over 3 years ago

10.1534/g3.113.008565

Design and Analysis of Bar-seq Experiments
Cited by: 79
Author(s): David G. Robinson, Wei Chen, John D. Storey, David Gresham
Software Mentions: 2
Published: almost 11 years ago

10.1186/s12864-018-5403-5

Probe-based association analysis identifies several deletions associated with average daily gain in beef cattle
Cited by: 17
Author(s): Lingyang Xu, Yang Liu, Lei Wang, Bo Zhu, Yan Chen, Huijiang Gao, Xue Gao, Lupei Zhang, George E. Liu, Junya Li
Software Mentions: 2
Published: almost 6 years ago

10.1534/g3.116.034785

Extensive Epigenetic Changes Accompany Terminal Differentiation of Mouse Hepatocytes After Birth
Cited by: 16
Author(s): Matthew Cannon, Genay Pilarowski, Xiuli Liu, David Serre
Software Mentions: 2
Published: about 8 years ago

10.3390/genes9110525

Profiling Cellular Processes in Adipose Tissue during Weight Loss Using Time Series Gene Expression
Cited by: 5
Author(s): Samar Tareen, Michiel E. Adriaens, Ilja C. W. Arts, Theo M. de Kok, Roel Vink, Nadia Roumans, Marleen A. van Baak, E.C.M. Mariman, Chris T. Evelo, Martina Kutmon
Software Mentions: 2
Published: about 6 years ago

10.1534/genetics.119.303013

A Microbe Associated with Sleep Revealed by a Novel Systems Genetic Analysis of the Microbiome in Collaborative Cross Mice
Cited by: 17
Author(s): Jason A. Bubier, Vivek M. Philip, Christopher Quince, James H. Campbell, Yanjiao Zhou, Tatiana A. Vishnivetskaya, Suman Duvvuru, Rachael Hageman Blair, Juliet Ndukum, Kevin D. Donohue, Carmen M. Foster, David J. Mellert, George M. Weinstock, Cymbeline T. Culiat, Bruce F. O’Hara, Anthony V. Palumbo, Mircea Podar, Elissa J. Chesler
Software Mentions: 2
Published: over 4 years ago

10.1186/gb-2006-7-8-r77

Cited by: 22
Author(s): Florian Hahne, Dorit Arlt, Mamatha Sauermann, Meher Majety, Annemarie Poustka, Stefan Wiemann, Wolfgang Huber
Software Mentions: 2
Published: almost 19 years ago

10.1186/s12864-018-4594-0

Defense against territorial intrusion is associated with DNA methylation changes in the honey bee brain
Cited by: 32
Author(s): Brian R. Herb, Molly S. Shook, Christopher J. Fields, Gene E. Robinson
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2164-12-S5-S7

A gene selection method for GeneChip array data with small sample sizes
Cited by: 5
Author(s): Zhongxue Chen, Qingzhong Liu, Monnie McGee, Megan Kong, Xudong Huang, Youping Deng, Richard H. Scheuermann
Software Mentions: 2
Published: almost 14 years ago

10.1093/gbe/evx230

Copy Number Variation and Expression Analysis Reveals a Nonorthologous Pinta Gene Family Member Involved in Butterfly Vision
Cited by: 2
Author(s): Aide Macias-Muñoz, Kyle J. McCulloch, Adriana D. Briscoe
Software Mentions: 2
Published: about 7 years ago

10.1136/gutjnl-2015-310861

Proton pump inhibitors alter the composition of the gut microbiota
Cited by: 587
Author(s): Matthew A. Jackson, Julia K. Goodrich, Maria Emanuela Maxan, Daniel E. Freedberg, Julian A. Abrams, Angela C. Poole, Jessica L. Sutter, Daphne K. Welter, Ruth E. Ley, Jordana T. Bell, Tim D. Spector, Claire J. Steves
Software Mentions: 2
Published: almost 9 years ago

10.7554/eLife.65532

Genomic basis for drought resistance in European beech forests threatened by climate change
Cited by: 25
Author(s): Markus Pfenninger, Friederike Reuss, Angelika Kiebler, Philipp Schönnenbeck, Cosima Caliendo, Susanne Gerber, Berardino Cocchiararo, Sabrina Reuter, Nico Blüthgen, Karsten Mody, Bagdevi Mishra, Miklós Bálint, Marco Thines, Barbara Feldmeyer
Software Mentions: 2
Published: over 3 years ago

10.18632/oncotarget.10242

Globally increased ultraconserved noncoding RNA expression in pancreatic adenocarcinoma
Cited by: 35
Author(s): Jinmai Jiang, Ana Clara P. Azevedo-Pouly, Roxana S. Redis, Eun Joo Lee, Yuriy Gusev, David Allard, Dhruvitkumar S. Sutaria, Mohamed Badawi, Ola A. Elgamal, Megan R. Lerner, Daniel J. Brackett, George A. Calin, Thomas D. Schmittgen
Software Mentions: 2
Published: over 8 years ago

10.1038/srep13541

Antennal RNA-sequencing analysis reveals evolutionary aspects of chemosensory proteins in the carpenter ant, Camponotus japonicus
Cited by: 24
Author(s): Masaru Hojo, Kenichi Ishii, Midori Sakura, Katsushi Yamaguchi, Shuji Shigenobu, Mamiko Ozaki
Software Mentions: 2
Published: about 9 years ago

10.1038/srep38347

Loss of EGFR-ASAP1 signaling in metastatic and unresectable hepatoblastoma
Cited by: 20
Author(s): Sarangarajan Ranganathan, Mylarappa Ningappa, Chethan Ashokkumar, Brandon W. Higgs, Jin‐Young Min, Qing Sun, Lori Schmitt, Shankar Subramaniam, Hákon Hákonarson, Rakesh Sindhi
Software Mentions: 2
Published: almost 8 years ago

10.18632/oncotarget.14683

Identification of microRNAs implicated in the late differentiation stages of normal B cells suggests a central role for miRNA targets ZEB1 and TP53
Cited by: 11
Author(s): Giorgio Malpeli, Stefano Barbi, Simona Zupo, Gabriele Tosadori, Giovanni Scardoni, Anna Bertolaso, Silvia Sartoris, Stefano Ugel, Caterina Vicentini, Matteo Fassan, Annalisa Adamo, Mauro Krampera, Maria Teresa Scupoli, Carlo M. Croce, Aldo Scarpa
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-017-10568-8

Transcriptome and proteome analysis reveal new insight into proximal and distal responses of wheat to foliar infection by Xanthomonas translucens
Cited by: 24
Author(s): Daniel García-Seco, Marco Chiapello, Marcella Bracale, Céline Pesce, Paolo Bagnaresi, Emeric Dubois, Lionel Moulin, Candida Vannini, Ralf Koebnik
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-017-15008-1

Mutation accumulation under UV radiation in Escherichia coli
Cited by: 50
Author(s): Atsushi Shibai, Yusuke Takahashi, Yuka Ishizawa, Daisuke Motooka, Shota Nakamura, Bei‐Wen Ying, Saburo Tsuru
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-017-18308-8

A central role for PI3K-AKT signaling pathway in linking SAMHD1-deficiency to the type I interferon signature
Cited by: 26
Author(s): Changhoon Oh, Jeongmin Ryoo, Kiwon Park, Baek Kim, Michele B. Daly, DongYeon Cho, Kwangseog Ahn
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-018-35789-3

Systematic Analysis and Biomarker Study for Alzheimer’s Disease
Cited by: 46
Author(s): Xinzhong Li, Haiyan Wang, Jintao Long, G. Pan, Taigang He, Oleg Anichtchik, Robert Belshaw, Diego Albani, Paul Edison, Elaine K. Green, James A. Scott
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-56193-5

MicroRNA profiles of dry secretions through the first three weeks of the dry period from Holstein cows
Cited by: 10
Author(s): Ellie J. Putz, Austin M. Putz, Hyeongseon Jeon, John D. Lippolis, Hao Ma, Timothy A. Reinhardt, Eduardo Casas
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12915-014-0101-5

The essential Schizosaccharomyces pombe Pfh1 DNA helicase promotes fork movement past G-quadruplex motifs to prevent DNA damage
Cited by: 60
Author(s): Nasim Sabouri, John A. Capra, Virginia A. Zakian
Software Mentions: 2
Published: almost 10 years ago

10.1089/zeb.2016.1366

Vascular Endothelial Growth Factor A and Leptin Expression Associated with Ectopic Proliferation and Retinal Dysplasia in Zebrafish Optic Pathway Tumors
Cited by: 3
Author(s): Linda Schultz, Staci L. Solin, Welsey A. Wierson, Janna M. Lovan, Judith Syrkin-Nikolau, Deborah E. Lincow, Andrew J. Severin, Donald S. Sakaguchi, Maura McGrail
Software Mentions: 2
Published: over 7 years ago

10.7717/peerj.11595

Genome-wide analysis of genetic diversity and artificial selection in Large White pigs in Russia
Cited by: 3
Author(s): Siroj Bakoev, Lyubov Getmantseva, Olga Kostyunina, Nekruz Bakoev, Yuri Prytkov, А. В. Усатов, Tatiana V. Tatarinova
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pbio.1000494

Chromosomal Redistribution of Male-Biased Genes in Mammalian Evolution with Two Bursts of Gene Gain on the X Chromosome
Cited by: 175
Author(s): Yong E. Zhang, Maria D. Vibranovski, Patrick Landback, Gabriel Marais, Manyuan Long
Software Mentions: 2
Published: about 14 years ago

10.3390/microorganisms8020304

Daily Intake of Paraprobiotic Lactobacillus amylovorus CP1563 Improves Pre-Obese Conditions and Affects the Gut Microbial Community in Healthy Pre-Obese Subjects: A Double-Blind, Randomized, Placebo-Controlled Study
Cited by: 13
Author(s): Toshitaka Sugawara, Daisuke Sawada, Sae Yanagihara, Yusuke Aoki, Isao Tanaka, Hirosuke Sugahara, Toshiyuki Hirota, Yasunori Nakamura, Susumu Ishikawa
Software Mentions: 2
Published: over 4 years ago

10.1155/2019/4517091

Cucurbitacin B Exerts Antiaging Effects in Yeast by Regulating Autophagy and Oxidative Stress
Cited by: 25
Author(s): Lin Yang, Yuki Kotakeyama, Jing Li, Yanjun Pan, Akira Matsuura, Yoshikazu Ohya, Minoru Yoshida, Lan Xiang, Jianhua Qi
Software Mentions: 2
Published: over 5 years ago

10.1186/s40168-017-0244-z

Proteobacteria explain significant functional variability in the human gut microbiome
Cited by: 127
Author(s): Patrick H. Bradley, Katherine S. Pollard
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pgen.1005929

Multi-locus Genotypes Underlying Temperature Sensitivity in a Mutationally Induced Trait
Cited by: 23
Author(s): Jonathan T. Lee, Matthew Taylor, Amy Shen, Ian M. Ehrenreich
Software Mentions: 1
Published: over 8 years ago

10.7554/eLife.42463

Interferon lambda 4 impacts the genetic diversity of hepatitis C virus
Cited by: 25
Author(s): Azim Ansari, Elihu Aranday-Cortes, Ip Clc., Ana da Silva Filipe, Sin-Ting Lau, Connor Bamford, David Bonsall, Amy Trebes, P Piazza, Vattipally B Sreenu, Vanessa M. Cowton, Jonathan K. Ball, Eleanor Barnes, Gary Burgess, Graham Cooke, John Dillon, Graham R. Foster, Charles Gore, Neil Guha, Rachel Halford, Chris Holmes, Emma Hudson, Sharon Hutchinson, Will Irving, Salim I. Khakoo, Paul Klenerman, Natasha K. Martin, Tamyo Mbisa, Jane A. McKeating, John McLauchlan, Alec Miners, A Murray, Patricia Shaw, Peter Simmonds, Sherie Smith, Chris C. A. Spencer, Emma C. Thomson, Phil Troke, Peter Vickerman, Nicole Zitzmann, Rory Bowden, Arvind H. Patel, Will Irving, Kosh Agarwal, Emma C. Thomson, Spencer Cca., Vincent Pedergnana
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0000692

Altered T-Cell Function in Schizophrenia: A Cellular Model to Investigate Molecular Disease Mechanisms
Cited by: 85
Author(s): Rachel Craddock, Helen Lockstone, David A. Rider, Matthew T. Wayland, Laura J.W. Harris, Peter J. McKenna, Sabine Bahn
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2164-15-464

Genetic control of functional traits related to photosynthesis and water use efficiency in Pinus pinaster Ait. drought response: integration of genome annotation, allele association and QTL detection for candidate gene identification
Cited by: 39
Author(s): Marina de Miguel, José Antonio Cabezas, Nuria de María, David Sánchez‐Gómez, M. Ángeles Guevara, María-Dolores Vélez, Enrique Sáez-Laguna, Luis-Manuel Díaz, Jose-Antonio Mancha, María Carmen Díaz‐Sala, Carmen Collada, Carmen Dı́az-Sala, Ismael Aranda, Marı́a Teresa Cervera
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0159707

Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning
Cited by: 12
Author(s): Dayle Johnston, Bernadette Earley, Paul Cormican, David A. Kenny, Matthew S. McCabe, A. K. Kelly, M. McGee, Sinéad M. Waters
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0202812

Cross-tissue eQTL enrichment of associations in schizophrenia
Cited by: 6
Author(s): Francesco Bettella, Andrew Anand Brown, Olav B. Smeland, Yungpeng Wang, Aree Witoelar, Alfonso Buil, Wesley K. Thompson, Verena Zuber, Anders M. Dale, Srdjan Djurovic, Ole A. Andreassen
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms18122618

Selection on the Major Color Gene Melanocortin-1-Receptor Shaped the Evolution of the Melanocortin System Genes
Cited by: 21
Author(s): Linda Dib, Luis M. San‐Jose, Anne–Lyse Ducrest, Nicolas Salamin, Alexandre Roulin
Software Mentions: 1
Published: almost 7 years ago

10.1186/1477-5956-11-2

Comparisons of protein profiles of beech bark disease resistant and susceptible American beech (Fagus grandifolia)
Cited by: 17
Author(s): Mary E. Mason, Jennifer Koch, M. J. Krasowski, Judy Loo
Software Mentions: 1
Published: almost 12 years ago

10.1186/1742-4690-6-72

Unique features of HLA-mediated HIV evolution in a Mexican cohort: a comparative study
Cited by: 34
Author(s): Santiago Ávila‐Ríos, Christopher E. Ormsby, Jonathan M. Carlson, Humberto Valenzuela-Ponce, Juan Blanco-Heredia, Daniela Garrido-Rodríguez, Claudia García‐Morales, David Heckerman, Zabrina L. Brumme, S. Mallal, Mina John, Enrique Espinosa, Gustavo Reyes‐Terán
Software Mentions: 1
Published: over 15 years ago